Hyperlink management system
[ Japanese ]

Index

  • About this system
  • Collected databases/IDs
  • Release History

    • About this system

    This System was developed at the Biological Information Research Center of the National Institute of Advanced Industrial Science and Technology with the financial support from the JST (2006-2008). Since 2008, the system is supported by the Integrated Database Project of the Ministry of Economy, Trade and Industry of Japan (a portal for the project:MEDALS).

    Data is regularly acquired from each data base, and this system maintains, and manages the relation of ID of each data base.
    Two services are offered by using those data and the system is being offered.
    - Hyperlink management system
    - Hyperlink management system CGI
    - ID converter system
    - Web service

    Creative Commons License
    This work is licensed under a Creative Commons Attribution 2.1 Japan License.
    Please cite the paper below if you utilize the systems provided on this web site.
    Imanishi T and Nakaoka H (2009) Hyperlink Management System and ID Converter System: enabling maintenance-free hyperlinks among major biological databases. Nucleic Acids Research 37(Web Server Issue) doi:10.1093/nar/gkp355. (http://biodb.jp/)

    Collected databases/IDs

    This system acquires data from the following data bases.

    H-InvDB   http://www.h-invitational.jp/hinv/ahg-db/index.jsp

    -Accession Number
    -H-Inv transcript ID(HIT)
    -H-Inv cluster ID (HIX)
    -H-Inv protein ID (HIP)

    NCBI   http://www.ncbi.nlm.nih.gov/

    -Accession Number
    -HUGO gene symbol
    -RefSeq
    -OMIM ID
    -GeneID
    -PubMed ID

    HUGO   http://www.genenames.org/

    -HUGO gene symbol
    -RefSeq

    H-GOLD   http://www.h-invitational.jp/gdbs/

    -Accession Number
    -H-GOLD Marker ID

    GeMDBJ   https://gemdbj.nibio.go.jp/

    -HUGO gene symbol
    -dbSNP rs#

    PDBj   http://www.pdbj.org/

    -UniProt Accession Number
    -PDB ID

    MutationView   http://mutview.dmb.med.keio.ac.jp/MutationView/jsp/mutview/index.jsp

    -HUGO gene symbol
    -OMIM ID

    Ensembl   http://www.ensembl.org/index.html

    -HUGO gene symbol
    -Ensembl Transcript ID (ENST)
    -Ensembl Gene ID (ENSG)

    UniProt   http://www.uniprot.org/

    -UniProt Accession Number
    -Accession Number

    fRNAdb   http://www.ncrna.org/frnadb

    -Accession Number
    -fRNAdb ID

    GGDB   http://riodb.ibase.aist.go.jp/rcmg/ggdb/

    -HUGO Gene Symbol
    -RefSeq

    HGPD   http://www.HGPD.jp/

    -Accession Number
    -Clone ID
    -FLJ ID

    KEGG   http://www.genome.jp/kegg/

    -GeneID
    -KEGG Gene ID
    -KEGG Pathway ID

    HPRD   http://www.hprd.org/

    -GeneID
    -HPRD ID

    NBRC   http://www.nbrc.nite.go.jp/e/index.html

    -Accession Number
    -Clone ID
    -FLJ ID

    LEGENA   http://h-invitational.jp/legenda/top.htm

    -GeneID

    Evola   http://www.h-invitational.jp/evola/search.html

    -H-Inv transcript ID(HIT)


    Data composition

    Release History

  • December 26, 2007 Official public release of Hyperlink Management System.
  • June 19, 2008 PDBj, MutationView were included. Official public release of ID Converter System.
  • January 6, 2009 Ensembl, GGDB and HPRD were included.
  • January 12, 2009 This system was licensed under a Creative Commons License.
  • August 20, 2009 "All Databases" was added as a target database of Hyperlink Management System.
  • September 29, 2009 KEGG were included.
  • October 21, 2009 HPRD were included.
  • December 28, 2009 "previous symbols" of HUGO Gene Symbol were added.
  • January 28, 2010 PubMed, GenBank, OMIM and NBRC were included.
  • February 25, 2010 Downloading data ID tables was enabled. LEGENDA and Evola were included.